On 9/1/10 2:09 PM, Johannes Ring wrote: > On Wed, Sep 1, 2010 at 9:17 AM, Johannes Ring <[email protected]> wrote: >> On Wed, Sep 1, 2010 at 8:39 AM, Harish Narayanan >> <[email protected]> wrote: >>> On 9/1/10 12:02 PM, Harish Narayanan wrote: >>>> On 9/1/10 2:44 AM, Marie Rognes wrote: >>>>> On 31. aug. 2010 22:56, Anders Logg wrote: >>>>>> On Tue, Aug 31, 2010 at 04:28:32PM +0200, Marie Rognes wrote: >>>>>> >>>>>>> On 31. aug. 2010 16:22, Johannes Ring wrote: >>>>>>> >>>>>>>> On Tue, Aug 31, 2010 at 4:13 PM, Marie Rognes <[email protected]> wrote: >>>>>>>> >>>>>>>> >>>>>>>>> I having some issues with PETSc (surprise) as of today. >>>>>>>>> >>>>>>>>> Dorsal tells me that (full log attached): >>>>>>>>> >>>>>>>>> [\snip] >>>>>>>>> >>>>>>>>> -- The following optional packages were found: >>>>>>>>> -- (OK) MPI >>>>>>>>> -- (OK) PETSC >>>>>>>>> -- (OK) SLEPC >>>>>>>>> -- (OK) UMFPACK >>>>>>>>> >>>>>>>>> [\snap] >>>>>>>>> >>>>>>>>> But: >>>>>>>>> >>>>>>>>> >>>>>>>>> >>>>>>>>>>>> from dolfin import * >>>>>>>>>>>> has_la_backend("PETSc") >>>>>>>>>>>> >>>>>>>>>>>> >>>>>>>>> False >>>>>>>>> >>>>>>>>> >>>>>>>>>>>> A = PETScMatrix() >>>>>>>>>>>> >>>>>>>>>>>> >>>>>>>>> Traceback (most recent call last): >>>>>>>>> File "<stdin>", line 1, in <module> >>>>>>>>> NameError: name 'PETScMatrix' is not defined >>>>>>>>> >>>>>>>>> >>>>>>>>>>>> >>>>>>>>> Help? >>>>>>>>> >>>>>>>>> >>>>>>>> There is no -DHAS_PETSC in your log. Try to clean up/remove the >>>>>>>> dorsal_build_dir inside the DOLFIN source directory. >>>>>>>> >>>>>>> >>>>>>> Removed. Check. >>>>>>> >>>>>>> >>>>>>> >>>>>>>> Then rerun Dorsal >>>>>>>> and see if the PETSc test passes. >>>>>>>> >>>>>>>> >>>>>>> -- The following optional packages were found: >>>>>>> -- (OK) MPI >>>>>>> -- (OK) PETSC >>>>>>> -- (OK) SLEPC >>>>>>> -- (OK) UMFPACK >>>>>>> -- (OK) PARMETIS >>>>>>> -- (OK) GMP >>>>>>> -- (OK) CGAL >>>>>>> -- (OK) ZLIB >>>>>>> -- (OK) PYTHON >>>>>>> -- The following optional packages could not be found: >>>>>>> -- (**) TRILINOS >>>>>>> -- (**) MTL4 >>>>>>> -- (**) CHOLMOD >>>>>>> -- (**) SCOTCH >>>>>>> -- Configuring done >>>>>>> -- Generating done >>>>>>> -- Build files have been written to: >>>>>>> /home/meg/local/dorsal_downloads/dolfin >>>>>>> make: *** No rule to make target `install'. Stop. >>>>>>> Failure with exit status: 2 >>>>>>> Exit message: There was a problem building dolfin. >>>>>>> >>>>>> I had the same problem (I think). It turned out to be a problem with my >>>>>> PETSC_ARCH variable which was set to linux-gnu-c-opt instead of >>>>>> linux-gnu-cxx-opt. >>>>>> >>>>>> >>>>> >>>>> Doesn't solve the problem for me :( >>>>> >>>>> - My PETSC_ARCH is set to linux-gnu-cxx-opt (cf gentoo.platform) >>>>> - cmake reports: -- PETSC_ARCH is linux-gnu-cxx-opt >>>>> - Still get same problem. >>>>> >>>>>> I think this changed in Dorsal at some point recently. >>>>>> >>>>>> >>>>> >>>>> Everything updated as of 20 seconds ago ... >>>> >>>> I too am now seeing strange things such as this: >>>> >>>> >>>> . >>>> . >>>> . >>>> >>>> -- PETSC_DIR is /Users/harish/Work/FEniCS/dev/src/petsc-3.1-p4 >>>> -- PETSC_ARCH is darwin10.0.0-cxx-opt >>>> -- Found petscconf.h >>>> -- PETSc test failed >>>> -- PETSc could not be found. Be sure to set PETSC_DIR and PETSC_ARCH. >>>> (missing: PETSC_TEST_RUNS) >>>> >>>> . >>>> . >>>> . >>>> >>>> -- (OK) MPI >>>> -- (OK) MTL4 >>>> -- (OK) UMFPACK >>>> -- (OK) CHOLMOD >>>> -- (OK) SCOTCH >>>> -- (OK) PARMETIS >>>> -- (OK) GMP >>>> -- (OK) CGAL >>>> -- (OK) ZLIB >>>> -- (OK) PYTHON >>>> -- The following optional packages could not be found: >>>> -- (**) PETSC >>>> -- (**) SLEPC >>>> -- (**) TRILINOS >>> >>> Following which (and independently), CMake fails catastrophically: >>> >>> Building CXX object dolfin/CMakeFiles/dolfin.dir/ale/HarmonicSmoothing.cpp.o >>> [ 1%] cd /foo/dolfin/dorsal_build_dir/dolfin && /opt/local/bin/c++ >>> -Ddolfin_EXPORTS -DPACKAGE_VERSION=\"0.9.8\" -DBOOST_UBLAS_NDEBUG >>> -DHAS_MTL4 -DMTL_HAS_BLAS -DHAS_UMFPACK -DHAS_CHOLMOD -DHAS_SCOTCH >>> -DHAS_PARMETIS -DHAS_CGAL -DHAS_GMP -DHAS_ZLIB -DHAS_CPPUNIT -DHAS_MPI >>> -DMPICH_IGNORE_CXX_SEEK -frounding-math;-D_REENTRANT -O2 -g -fPIC >>> -I/foo/dolfin -I/opt/local/include/libxml2 >>> -I/Users/harish/Work/FEniCS/dev/include -I/opt/local/include >>> -I/Users/harish/Work/FEniCS/dev/src/mtl4 -I/opt/local/include/ufsparse >>> -I/opt/local/include/cppunit -o >>> CMakeFiles/dolfin.dir/ale/HarmonicSmoothing.cpp.o -c >>> /foo/dolfin/dolfin/ale/HarmonicSmoothing.cpp >>> i686-apple-darwin10-g++-4.2.1: no input files >>> i686-apple-darwin10-g++-4.2.1: no input files >>> Building CXX object >>> dolfin/CMakeFiles/dolfin.dir/ale/TransfiniteInterpolation.cpp.o >>> cd /foo/dolfin/dorsal_build_dir/dolfin && /opt/local/bin/c++ >>> -Ddolfin_EXPORTS -DPACKAGE_VERSION=\"0.9.8\" -DBOOST_UBLAS_NDEBUG >>> -DHAS_MTL4 -DMTL_HAS_BLAS -DHAS_UMFPACK -DHAS_CHOLMOD -DHAS_SCOTCH >>> -DHAS_PARMETIS -DHAS_CGAL -DHAS_GMP -DHAS_ZLIB -DHAS_CPPUNIT -DHAS_MPI >>> -DMPICH_IGNORE_CXX_SEEK -frounding-math;-D_REENTRANT -O2 -g -fPIC >>> -I/foo/dolfin -I/opt/local/include/libxml2 >>> -I/Users/harish/Work/FEniCS/dev/include -I/opt/local/include >>> -I/Users/harish/Work/FEniCS/dev/src/mtl4 -I/opt/local/include/ufsparse >>> -I/opt/local/include/cppunit -o >>> CMakeFiles/dolfin.dir/ale/TransfiniteInterpolation.cpp.o -c >>> /foo/dolfin/dolfin/ale/TransfiniteInterpolation.cpp >>> Building CXX object dolfin/CMakeFiles/dolfin.dir/common/real.cpp.o >>> /bin/sh: -D_REENTRANT: command not found >>> /bin/sh: -D_REENTRANT: command not found >> >> I made a fix for this yesterday. Maybe you just need to clean up the >> CMake cache (remove the dorsal_build_dir folder)? > > My fix was reverted but it should be fixed again now.
This problem is fixed, leaving only the petsc/slepc error. Harish _______________________________________________ Mailing list: https://launchpad.net/~dorsal Post to : [email protected] Unsubscribe : https://launchpad.net/~dorsal More help : https://help.launchpad.net/ListHelp
